Added start for Shiva report

public/biopet-framework/src/main/resources/nl/lumc/sasc/biopet/core/report/ShivaVariantcalling.ssp

+#import(nl.lumc.sasc.biopet.core.summary.Summary)
+#import(nl.lumc.sasc.biopet.core.report.ReportPage)
+<%@ var summary: Summary %>
+<%@ var sampleId: Option[String] = None %>
+#{
+    val fields = List("Hom", "HomVar", "HomRef", "NoCall", "Variant", "NonInformative", "Total")
+    val samples = sampleId match {
+        case Some(sample) => List(sample.toString)
+        case _ => summary.samples.toList
+    }
+}#
+
+<table>
+<thead><tr><th>Sample</th>
+#for (field <- fields) <th>${field}</th> #end
+</tr></thead>
+<tbody>
+    #for (sample <- samples.toList.sorted)
+        <tr><td>${sample}</td>
+        #for (field <- fields)
+            <td>${summary.getSampleValue(sample, "shivavariantcalling", "stats", "multisample-vcfstats-final", "genotype", field)}</td>
+        #end
+        </tr>
+    #end
+</tbody>
+</table>
\ No newline at end of file

public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaReport.scala

+package nl.lumc.sasc.biopet.pipelines.shiva
+
+import nl.lumc.sasc.biopet.core.report.{MultisampleReportBuilder, ReportPage}
+import nl.lumc.sasc.biopet.pipelines.flexiprep.FlexiprepReport
+
+/**
+ * Created by pjvan_thof on 3/30/15.
+ */
+object ShivaReport extends MultisampleReportBuilder {
+  def samplePage(sampleId: String, args: Map[String, Any]) = {
+    ReportPage(Map("Libraries" -> generateLibraryPage(args)), Map(
+      "Variantcalling" -> "/nl/lumc/sasc/biopet/core/report/ShivaVariantcalling.ssp"
+    ), args)
+  }
+
+  def libraryPage(libId: String, args: Map[String, Any]) = {
+    ReportPage(Map("Flexiprep" -> FlexiprepReport.indexPage), Map(), args)
+  }
+
+  def reportName = "Title Test"
+
+  def generalPage = ReportPage(Map(), Map(
+    "Variantcalling" -> "/nl/lumc/sasc/biopet/core/report/ShivaVariantcalling.ssp",
+    "Flexiprep" -> "/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepSummary.ssp"
+  ), Map())
+
+  // FIXME: Not yet finished
+}